selected scholarly activity
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academic article
- Male and female bees show large differences in floral preference 2018
- Healthcare Resource Uses and Out-of-Pocket Expenses Associated with Pulmonary TB Treatment in Thailand.. Pharmacoecon Open. 2:297-308. 2018
- Out-of-Pocket Expenditures, Indirect Costs and Health-Related Quality of Life of Patients with Pulmonary Tuberculosis in Thailand.. Pharmacoecon Open. 2:281-296. 2018
- Correction to 'Speciation over the edge: gene flow among non-human primate species across a formidable biogeographic barrier'.. Royal Society Open Science. 5:180736. 2018
- Equivalence of the Erlang SEIR epidemic model and the renewal equation 2018
- Couple serostatus patterns in sub-Saharan Africa illuminate the relative roles of transmission rates and sexual network characteristics in HIV epidemiology.. Scientific Reports. 8:6675. 2018
- Stochastic simulation of multiscale complex systems with PISKaS: A rule-based approach.. Biochemical and Biophysical Research Communications. 498:342-351. 2018
- Partner age differences and associated sexual risk behaviours among adolescent girls and young women in a cash transfer programme for schooling in Malawi.. BMC Public Health. 18:403. 2018
- Two approaches to forecast Ebola synthetic epidemics.. Epidemics. 22:36-42. 2018
- On the origin of obesity: identifying the biological, environmental and cultural drivers of genetic risk among human populations.. Obesity Reviews. 19:121-149. 2018
- Patterns of influenza vaccination coverage in the United States from 2009 to 2015.. International Journal of Infectious Diseases. 65:122-127. 2017
- Kaiso is highly expressed in TNBC tissues of women of African ancestry compared to Caucasian women.. Cancer Causes and Control. 28:1295-1304. 2017
- Speciation over the edge: gene flow among non-human primate species across a formidable biogeographic barrier.. Royal Society Open Science. 4:170351. 2017
- Quantifying ethical tradeoffs for vaccine efficacy trials during severe epidemics 2017
- Lysis, lysogeny and virus-microbe ratios. Nature Nature: New biology. 549:E1-E3. 2017
- Lysis, lysogeny and virus-microbe ratios.. Nature Nature: New biology. 549:E1-E3. 2017
- A double-edged sword: does highly active antiretroviral therapy contribute to syphilis incidence by impairing immunity to Treponema pallidum?. Sexually Transmitted Infections. 93:374-378. 2017
- Eco-Evolutionary Theory and Insect Outbreaks.. American Naturalist. 189:616-629. 2017
- Role of pharmaceutical care for self-administered pulmonary tuberculosis treatment in Thailand.. Journal of Clinical Pharmacy and Therapeutics. 42:337-344. 2017
- Fitting mechanistic epidemic models to data: a comparison of simple Markov chain Monte Carlo approaches 2017
- Evidence that promotion of male circumcision did not lead to sexual risk compensation in prioritized Sub-Saharan countries.. PLoS ONE. 12:e0175928. 2017
- Stochasticity and the limits to confidence when estimating R0 of Ebola and other emerging infectious diseases.. Journal of Theoretical Biology. 408:145-154. 2016
- Epidemiological impact of a syphilis vaccine: a simulation study.. Epidemiology and Infection. 144:3244-3252. 2016
- Reevaluating Cumulative HIV-1 Viral Load as a Prognostic Predictor: Predicting Opportunistic Infection Incidence and Mortality in a Ugandan Cohort.. American Journal of Epidemiology. 184:67-77. 2016
- The Hayflick Limit May Determine the Effective Clonal Diversity of Naive T Cells.. Journal of Immunology. 196:4999-5004. 2016
- Estimating finite-population reproductive numbers in heterogeneous populations.. Journal of Theoretical Biology. 397:1-12. 2016
- The risk of incomplete personal protection coverage in vector-borne disease.. Journal of the Royal Society Interface. 13:20150666. 2016
- Bifurcations and Chaotic Dynamics in a Tumour-Immune-Virus System. Mathematical Modelling of Natural Phenomena. 11:65-85. 2016
- Intrinsic and realized generation intervals in infectious-disease transmission.. Proceedings of the Royal Society B: Biological Sciences. 282:20152026. 2015
- Evaluating Ebola vaccine trials: insights from simulation.. The Lancet Infectious Diseases. 15:1134. 2015
- Modeling the effect of HIV coinfection on clearance and sustained virologic response during treatment for hepatitis C virus.. Epidemics. 12:1-10. 2015
- The effect of sexually transmitted co-infections on HIV viral load amongst individuals on antiretroviral therapy: a systematic review and meta-analysis.. BMC Infectious Diseases. 15:249. 2015
- Statistical power and validity of Ebola vaccine trials in Sierra Leone: a simulation study of trial design and analysis.. The Lancet Infectious Diseases. 15:703-710. 2015
- Correction: Estimating the global burden of endemic canine rabies.. PLoS Neglected Tropical Diseases. 9:e0003786. 2015
- Estimating the global burden of endemic canine rabies.. PLoS Neglected Tropical Diseases. 9:e0003709. 2015
- Modeling post-death transmission of Ebola: challenges for inference and opportunities for control.. Scientific Reports. 5:8751. 2015
- Reassessment of HIV-1 acute phase infectivity: accounting for heterogeneity and study design with simulated cohorts.. PLoS Medicine. 12:e1001801. 2015
- Modelling of OGTT curve identifies 1 h plasma glucose level as a strong predictor of incident type 2 diabetes: results from two prospective cohorts.. Diabetologia. 58:87-97. 2015
- Ebola virus vaccine trials: the ethical mandate for a therapeutic safety net.. British Medical Journal BMJ (Clinical research ed.). 349:g7518. 2014
- Ebola control: effect of asymptomatic infection and acquired immunity.. The Lancet. 384:1499-1500. 2014
- Analytic calculation of finite-population reproductive numbers for direct- and vector-transmitted diseases with homogeneous mixing.. Bulletin of Mathematical Biology. 76:1143-1154. 2014
- Species abundance, not diet breadth, drives the persistence of the most linked pollinators as plant-pollinator networks disassemble.. American Naturalist. 183:600-611. 2014
- Exploring links between pH and bacterial community composition in soils from the Craibstone Experimental Farm.. FEMS Microbiology Ecology. 87:403-415. 2014
- Re: "The 'case-chaos study' L adjunct or alternative to conventional case-control study methodology".. American Journal of Epidemiology. 179:261-262. 2014
- Estimating initial epidemic growth rates.. Bulletin of Mathematical Biology. 76:245-260. 2014
- Patterns of spread of influenza A in Canada.. Proceedings of the Royal Society B: Biological Sciences. 280:20131174. 2013
- Population-level effects of clinical immunity to malaria.. BMC Infectious Diseases. 13:428. 2013
- Inferring the causes of the three waves of the 1918 influenza pandemic in England and Wales.. Proceedings of the Royal Society B: Biological Sciences. 280:20131345. 2013
- Effects of mixing in threshold models of social behavior.. Physical Review E - Statistical, Nonlinear, and Soft Matter Physics. 88:012816. 2013
- Robust estimation of microbial diversity in theory and in practice.. ISME Journal. 7:1092-1101. 2013
- Intimate partner violence is associated with HIV infection in women in Kenya: a cross-sectional analysis.. BMC Public Health. 13:512. 2013
- Extra-couple HIV transmission in sub-Saharan Africa: a mathematical modelling study of survey data.. The Lancet. 381:1561-1569. 2013
- Designing programs for eliminating canine rabies from islands: Bali, Indonesia as a case study.. PLoS Neglected Tropical Diseases. 7:e2372. 2013
- Genomic dynamics of transposable elements in the western clawed frog (Silurana tropicalis).. Genome Biology and Evolution. 5:998-1009. 2013
- HIV sexual transmission is predominantly driven by single individuals rather than discordant couples: a model-based approach.. PLoS ONE. 8:e82906. 2013
- A non-negative matrix factorization framework for identifying modular patterns in metagenomic profile data.. Journal of Mathematical Biology. 64:697-711. 2012
- Effects of school closure on incidence of pandemic influenza in Alberta, Canada.. Annals of Internal Medicine. 156:173-181. 2012
- Agricultural intensification, priming for persistence and the emergence of Nipah virus: a lethal bat-borne zoonosis.. Journal of the Royal Society Interface. 9:89-101. 2012
- Functional biogeography of ocean microbes revealed through non-negative matrix factorization.. PLoS ONE. 7:e43866. 2012
- How to make epidemiological training infectious.. PLoS Biology. 10:e1001295. 2012
- The odds of duplicate gene persistence after polyploidization.. BMC Genomics. 12:599. 2011
- Multi-stability and multi-instability phenomena in a mathematical model of tumor-immune-virus interactions.. Bulletin of Mathematical Biology. 73:2932-2961. 2011
- Age-specific mortality risk from pandemic influenza.. Journal of Theoretical Biology. 288:29-34. 2011
- Mechanistic modelling of the three waves of the 1918 influenza pandemic. Theoretical Ecology. 4:283-288. 2011
- Prevalence of epistasis in the evolution of influenza A surface proteins.. PLoS Genetics. 7:e1001301. 2011
- Modeling the population-level effects of male circumcision as an HIV-preventive measure: a gendered perspective.. PLoS ONE. 6:e28608. 2011
- Unlocking the forest inventory data: relating individual tree performance to unmeasured environmental factors.. Ecological Applications. 20:684-699. 2010
- Fluctuation domains in adaptive evolution.. Theoretical Population Biology. 77:6-13. 2010
- Reconstructing influenza incidence by deconvolution of daily mortality time series.. Proceedings of the National Academy of Sciences of the United States of America. 106:21825-21829. 2009
- Unsupervised statistical clustering of environmental shotgun sequences.. BMC Bioinformatics. 10:316. 2009
- Initial human transmission dynamics of the pandemic (H1N1) 2009 virus in North America.. Influenza and other Respiratory Viruses. 3:215-222. 2009
- Directionality in the evolution of influenza A haemagglutinin (vol 275, pg 2455, 2008). Proceedings of the Royal Society B: Biological Sciences. 276:3035-3035. 2009
- On the accessibility of adaptive phenotypes of a bacterial metabolic network.. PLoS Computational Biology. 5:e1000472. 2009
- Avoiding spurious findings of nonrandom social structure in association data. Animal Behaviour. 77:1381-1385. 2009
- Reproductive status influences group size and persistence of bonds in male plains zebra (Equus burchelli). Behavioral Ecology and Sociobiology. 63:1035-1043. 2009
- On the use of hemagglutination-inhibition for influenza surveillance: surveillance data are predictive of influenza vaccine effectiveness.. Vaccine. 27:2447-2452. 2009
- Transmission dynamics and prospects for the elimination of canine rabies.. PLoS Biology. 7:e53. 2009
- Ability to replicate in the cytoplasm predicts zoonotic transmission of livestock viruses.. Journal of Infectious Diseases. 199:565-568. 2009
- A mixability theory for the role of sex in evolution.. Proceedings of the National Academy of Sciences of the United States of America. 105:19803-19808. 2008
- Host-pathogen interactions, insect outbreaks, and natural selection for disease resistance.. American Naturalist. 172:829-842. 2008
- Directionality in the evolution of influenza A haemagglutinin.. Proceedings of the Royal Society B: Biological Sciences. 275:2455-2464. 2008
- SCALING FROM TREES TO FORESTS: TRACTABLE MACROSCOPIC EQUATIONS FOR FOREST DYNAMICS. Ecological Monographs. 78:523-545. 2008
- WHITE SPRUCE MEETS BLACK SPRUCE: DISPERSAL, POSTFIRE ESTABLISHMENT, AND GROWTH IN A WARMING CLIMATE. Ecological Monographs. 78:489-505. 2008
- Antibiotic overuse: The influence of social norms. Journal of the American College of Surgeons. 207:265-275. 2008
- Exploring reservoir dynamics: a case study of rabies in the Serengeti ecosystem.. Journal of Applied Ecology. 45:1246-1257. 2008
- Natural selection for nucleotide usage at synonymous and nonsynonymous sites in influenza A virus genes.. Journal of Virology. 82:4938-4945. 2008
- Alternative stable states in host-phage dynamics. Theoretical Ecology. 1:13-19. 2008
- Rabies exposures, post-exposure prophylaxis and deaths in a region of endemic canine rabies.. PLoS Neglected Tropical Diseases. 2:e339. 2008
- Intraspecific variation and species coexistence.. American Naturalist. 170:807-818. 2007
- Native bees provide insurance against ongoing honey bee losses.. Ecology Letters. 10:1105-1113. 2007
- On state-space reduction in multi-strain pathogen models, with an application to antigenic drift in influenza A.. PLoS Computational Biology. 3:e159. 2007
- The genesis and spread of reassortment human influenza A/H3N2 viruses conferring adamantane resistance.. Molecular Biology and Evolution. 24:1811-1820. 2007
- Synchronous cycles of domestic dog rabies in sub-Saharan Africa and the impact of control efforts.. Proceedings of the National Academy of Sciences of the United States of America. 104:7717-7722. 2007
- Vaccinating to protect a vulnerable subpopulation.. PLoS Medicine. 4:e174. 2007
- Network metrics reveal differences in social organization between two fission-fusion species, Grevy's zebra and onager.. Oecologia. 151:140-149. 2007
- Bursts of nonsynonymous substitutions in HIV-1 evolution reveal instances of positive selection at conservative protein sites.. Proceedings of the National Academy of Sciences of the United States of America. 103:19396-19401. 2006
- Codon usage and selection on proteins.. Journal of Molecular Evolution. 63:635-653. 2006
- Estimating selection pressures from limited comparative data. Molecular Biology and Evolution. 23:1457-1459. 2006
- Estimating selection pressures from limited comparative data.. Molecular Biology and Evolution. 23:1457-1459. 2006
- Enhancing the use of clinical guidelines: A social norms perspective. Journal of the American College of Surgeons. 202:826-836. 2006
- Battling bad behavior (vol 20, pg 51, 2002). Scientist. 20:15-15. 2006
- A Monte Carlo model for estimating the productivity of a generalist brood parasite across multiple host species. Evolutionary Ecology Research. 8:213-236. 2006
- Battling bad behavior. Scientist. 20:51-+. 2006
- US flu mortality estimates are based on solid science.. British Medical Journal BMJ (Clinical research ed.). 332:177-178. 2006
- Mortality due to influenza in the United States--an annualized regression approach using multiple-cause mortality data.. American Journal of Epidemiology. 163:181-187. 2006
- The entomological inoculation rate and Plasmodium falciparum infection in African children.. Nature Nature: New biology. 438:492-495. 2005
- Agricultural antibiotics and human health.. PLoS Medicine. 2:e232. 2005
- Directed seed dispersal and metapopulation response to habitat loss and disturbance: application to Eichhornia paniculata. Journal of Ecology. 93:658-669. 2005
- Assessing influenza-related mortality: comment on Zucs et al.. Emerging Themes in Epidemiology. 2:7. 2005
- Marine reserve design and the evolution of size at maturation in harvested fish. Ecological Applications. 15:882-901. 2005
- Testing simple indices of habitat proximity.. American Naturalist. 165:707-717. 2005
- Evolutionary genomics - Detecting selection needs comparative data - Codon volatility does not detect selection - Reply. Nature Nature: New biology. 433:E7-E8. 2005
- Dynamical resonance can account for seasonality of influenza epidemics.. Proceedings of the National Academy of Sciences of the United States of America. 101:16915-16916. 2004
- The risk of a mosquito-borne infection in a heterogeneous environment.. PLoS Biology. 2:e368. 2004
- A simulation model of African Anopheles ecology and population dynamics for the analysis of malaria transmission.. Malaria Journal. 3:29. 2004
- The combined effects of pathogens and predators on insect outbreaks.. Nature Nature: New biology. 430:341-345. 2004
- Comment on "Metapopulation persistence with age-dependent disturbance or succession".. Science The Scientific monthly. 304:684. 2004
- Detecting selection using a single genome sequence of M. tuberculosis and P. falciparum.. Nature Nature: New biology. 428:942-945. 2004
- Persistent colonization and the spread of antibiotic resistance in nosocomial pathogens: Resistance is a regional problem (vol 101, pg 3709, 2004). Proceedings of the National Academy of Sciences of the United States of America. 101:5696-5696. 2004
- Persistent colonization and the spread of antibiotic resistance in nosocomial pathogens: resistance is a regional problem.. Proceedings of the National Academy of Sciences of the United States of America. 101:3709-3714. 2004
- Evolution and persistence of influenza A and other diseases.. Mathematical Biosciences. 188:17-28. 2004
- Codon bias and frequency-dependent selection on the hemagglutinin epitopes of influenza A virus.. Proceedings of the National Academy of Sciences of the United States of America. 100:7152-7157. 2003
- Metapopulations, community assembly, and scale invariance in aspect space.. Theoretical Population Biology. 62:329-338. 2002
- Ecology and evolution of the flu. Trends in Ecology and Evolution. 17:334-340. 2002
- Hemagglutinin sequence clusters and the antigenic evolution of influenza A virus.. Proceedings of the National Academy of Sciences of the United States of America. 99:6263-6268. 2002
- Evaluating the risks of engineered viruses: Modeling pathogen competition. Ecological Applications. 11:1602-1609. 2001
- Phenotypic diversity and ecosystem functioning in changing environments: a theoretical framework.. Proceedings of the National Academy of Sciences of the United States of America. 98:11376-11381. 2001
- Community assembly and the emergence of ecosystem pattern. Scientia Marina. 65:171-179. 2001
- Pathogen-Driven Outbreaks in Forest Defoliators Revisited: Building Models from Experimental Data.. American Naturalist. 156:105-120. 2000
- Carrying capacity and demographic stochasticity: scaling behavior of the stochastic logistic model.. Theoretical Population Biology. 57:59-65. 2000
- Host heterogeneity and disease endemicity: a moment-based approach.. Theoretical Population Biology. 56:325-335. 1999
- Local frequency dependence and global coexistence.. Theoretical Population Biology. 55:270-282. 1999
- Limiting similarity, species packing, and system stability for hierarchical competition-colonization models. American Naturalist. 153:371-383. 1999
- Backwards bifurcations and catastrophe in simple models of fatal diseases.. Journal of Mathematical Biology. 36:227-248. 1998
- Incorporating immunological ideas in epidemiological models.. Journal of Theoretical Biology. 180:181-187. 1996
- The effects of population heterogeneity on disease invasion.. Mathematical Biosciences. 128:25-40. 1995
- RECENT AND HISTORIC RED SPRUCE MORTALITY - EVIDENCE OF CLIMATIC INFLUENCE. Water, Air, and Soil Pollution Water, Air, and Soil Pollution: Focus. 30:319-330. 1986
- Post-death Transmission of Ebola: Challenges for Inference and Opportunities for Control
- Relatedness of the Incidence Decay with Exponential Adjustment (IDEA) Model, "Farr's Law" and Compartmental Difference Equation SIR Models
- Synonymous codon usage and selection on proteins
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conference paper
- Incorporating stochasticity in simple models of disease spread. MODELING PARADIGMS AND ANALYSIS OF DISEASE TRANSMISSION MODELS. 121-133. 2010
- Understanding Nipah virus emergence in peninsular Malaysia: The role of epidemic enhancement in domestic pig populations. American Journal of Tropical Medicine and Hygiene. 273-273. 2007
- Bursts of non-synonymous substitutions in HIV-1 phylogenetic tree reveal instances of positive selection at conservative protein sites. PROCEEDINGS OF THE FIFTH INTERNATIONAL CONFERENCE ON BIOINFORMATICS OF GENOME REGULATION AND STRUCTURE, VOL 3. 114-+. 2006